One-to-n alignments
Command: compare-matrices -v 1 -format transfac -file $RSAT/public_html/tmp/www-data/2025/04/13/peak-motifs.2025-04-13.172640_2025-04-13.172640_Wu3iyl/results/discovered_motifs/peak-motifs_motifs_discovered.tf -distinct -mode matches -strand DR -uth offset_rank 1 -lth w 5 -lth Wr 0.3 -lth cor 0.7 -lth Ncor 0.4 -return matrix_name,matrix_id,cor,Ncor,width,strand,offset,alignments_1ton -sort Ncor -quick -o $RSAT/public_html/tmp/www-data/2025/04/13/peak-motifs.2025-04-13.172640_2025-04-13.172640_Wu3iyl/results/discovered_motifs/peak-motifs_motifs_disco_compa.tab
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m2_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2) |
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; oligos_6nt_mkv3_m2; m=0 (reference); ncol1=10; shift=0; ncol=10; syCGATGAss
; Alignment reference
a 26 25 0 0 168 0 0 168 32 28
c 50 47 168 0 0 0 0 0 47 59
g 60 41 0 168 0 0 168 0 54 51
t 32 55 0 0 0 168 0 0 35 30
|
| oligos_6nt_mkv3_m2_shift0 (oligos_6nt_mkv3_m2) |
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; oligos_6nt_mkv3_m2 versus oligos_6nt_mkv3_m2; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; syCGATGAss
; cor=; Ncor=
a 26 25 0 0 168 0 0 168 32 28
c 50 47 168 0 0 0 0 0 47 59
g 60 41 0 168 0 0 168 0 54 51
t 32 55 0 0 0 168 0 0 35 30
|
One-to-n matrix alignment; reference matrix: oligos_7nt_mkv4_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1) |
 |
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; oligos_7nt_mkv4_m1; m=0 (reference); ncol1=11; shift=0; ncol=11; ssCACGCTCrs
; Alignment reference
a 48 60 8 236 16 13 4 2 6 81 45
c 75 68 224 7 202 23 221 8 217 55 68
g 75 65 11 2 21 202 15 2 17 63 79
t 53 58 8 6 12 13 11 239 11 52 59
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| oligos_7nt_mkv4_m1_shift0 (oligos_7nt_mkv4_m1) |
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; oligos_7nt_mkv4_m1 versus oligos_7nt_mkv4_m1; m=1/1; ncol2=11; w=0; offset=0; strand=D; shift=0; score= 1; ssCACGCTCrs
; cor=; Ncor=
a 48 60 8 236 16 13 4 2 6 81 45
c 75 68 224 7 202 23 221 8 217 55 68
g 75 65 11 2 21 202 15 2 17 63 79
t 53 58 8 6 12 13 11 239 11 52 59
|
One-to-n matrix alignment; reference matrix: positions_6nt_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| positions_6nt_m1_shift0 (positions_6nt_m1) |
 |
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; positions_6nt_m1; m=0 (reference); ncol1=10; shift=0; ncol=10; ssAATTCCyr
; Alignment reference
a 16 15 115 108 0 1 10 0 24 30
c 41 36 0 4 2 1 105 114 37 25
g 43 40 0 3 2 0 0 0 24 36
t 15 24 0 0 111 113 0 1 30 24
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| positions_6nt_m1_shift0 (positions_6nt_m1) |
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; positions_6nt_m1 versus positions_6nt_m1; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; ssAATTCCyr
; cor=; Ncor=
a 16 15 115 108 0 1 10 0 24 30
c 41 36 0 4 2 1 105 114 37 25
g 43 40 0 3 2 0 0 0 24 36
t 15 24 0 0 111 113 0 1 30 24
|
One-to-n matrix alignment; reference matrix: oligos_6nt_mkv3_m1_shift0 ; 2 matrices ; sort_field=Ncor
| Matrix name | Aligned logos | cor |
Ncor |
Aligned matrices |
|---|
| oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1) |
 |
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; oligos_6nt_mkv3_m1; m=0 (reference); ncol1=10; shift=0; ncol=10; skCGGCGAys
; Alignment reference
a 46 35 0 0 0 0 0 228 45 56
c 69 53 228 0 0 228 0 0 68 68
g 68 74 0 228 228 0 228 0 48 64
t 45 66 0 0 0 0 0 0 67 40
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| oligos_6nt_mkv3_m1_shift0 (oligos_6nt_mkv3_m1) |
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; oligos_6nt_mkv3_m1 versus oligos_6nt_mkv3_m1; m=1/1; ncol2=10; w=0; offset=0; strand=D; shift=0; score= 1; skCGGCGAys
; cor=; Ncor=
a 46 35 0 0 0 0 0 228 45 56
c 69 53 228 0 0 228 0 0 68 68
g 68 74 0 228 228 0 228 0 48 64
t 45 66 0 0 0 0 0 0 67 40
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